Before anyone tells me to go to HotScripts.com, I am writing an addon for directories. I need to know what specific ones are actually used so I can make the addon for the popular scripts.
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you might want to try: http://turn-k.net/k-links/premium
but it's not free, (not my site)
it all includes all future updates, mods, features... even add an admin, mod with different levels
I use Arelis quite a bit (http://www.axandra-link-popularity-tool.com/index.htm). It's not free either but it's really customizable and it generates static HTML. It's wide open for though for someone to make add-ons...especially something to extend it's capabilities (Paid Submissions) or some sort of online admin backend to process link requests.
weblord - I've looked at that script in the past myself. Impressive features but I don't like the idea of paying for a license for each site when there are so many other options out there.